Pockets And Cavities Using Pseudoatoms in Proteins
PACUPP is a Jmol script that fills pockets, cavities, tunnels/channels in proteins with
pseudoatoms. PACUPP provides tools to isolate cavities of interest and display their contents,
their linings (and list the lining atoms, spreadsheet-ready), entrances (mouths), volumes,
shapes, and dimensions. PACUPP adds the pseudoatoms to an output PDB file,
which can then be viewed in Jmol with PACUPP commands,
or in the software of your choice (e.g. PyMOL, Chimera, VMD, Cn3D, etc.).
PACUPP (Jmol) is Java-based, and thus works in Windows, macOS, and linux.
Version 1.0, December 9, 2020.